mirror of https://github.com/gnss-sdr/gnss-sdr
Add matio library and add test case for it
This commit is contained in:
Carles Fernandez
parent
c45c8f80af
commit
929125cce5
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@ -1442,6 +1442,54 @@ endif(ENABLE_GPROF)
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########################################################################
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# Matio (OPTIONAL) - https://github.com/tbeu/matio
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########################################################################
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find_package(MATIO)
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if(NOT MATIO_FOUND)
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find_package(ZLIB)
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get_filename_component(ZLIB_BASE_DIR ${ZLIB_INCLUDE_DIRS} DIRECTORY)
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find_package(HDF5)
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list(GET ${HDF5_INCLUDE_DIRS} 0 HDF5_INCLUDE_FIRST_DIR)
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get_filename_component(HDF5_BASE_DIR ${HDF5_INCLUDE_FIRST_DIR} DIRECTORY)
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if(OS_IS_MACOSX)
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if(EXISTS /opt/local/include/hdf5.h)
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set(HDF5_BASE_DIR /opt/local)
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endif(EXISTS /opt/local/include/hdf5.h)
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if(EXISTS /usr/local/include/hdf5.h)
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set(HDF5_BASE_DIR /usr/local)
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endif(EXISTS /usr/local/include/hdf5.h)
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endif(OS_IS_MACOSX)
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if(CMAKE_VERSION VERSION_LESS 3.2)
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ExternalProject_Add(
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matio
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PREFIX ${CMAKE_CURRENT_BINARY_DIR}/matio
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GIT_REPOSITORY https://github.com/tbeu/matio
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GIT_TAG master
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SOURCE_DIR ${CMAKE_CURRENT_SOURCE_DIR}/thirdparty/matio/matio
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UPDATE_COMMAND ${CMAKE_CURRENT_SOURCE_DIR}/thirdparty/matio/matio/autogen.sh
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CONFIGURE_COMMAND ${CMAKE_CURRENT_SOURCE_DIR}/thirdparty/matio/matio/configure --with-hdf5=${HDF5_BASE_DIR} --with-zlib=${ZLIB_BASE_DIR} --with-default-file-ver=7.3 --enable-mat73=yes --prefix=<INSTALL_DIR>
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BUILD_COMMAND "${CMAKE_MAKE_PROGRAM}"
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)
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else(CMAKE_VERSION VERSION_LESS 3.2)
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ExternalProject_Add(
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matio
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PREFIX ${CMAKE_CURRENT_BINARY_DIR}/matio
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GIT_REPOSITORY https://github.com/tbeu/matio
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GIT_TAG master
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SOURCE_DIR ${CMAKE_CURRENT_SOURCE_DIR}/thirdparty/matio/matio
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UPDATE_COMMAND ${CMAKE_CURRENT_SOURCE_DIR}/thirdparty/matio/matio/autogen.sh
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CONFIGURE_COMMAND ${CMAKE_CURRENT_SOURCE_DIR}/thirdparty/matio/matio/configure --with-hdf5=${HDF5_BASE_DIR} --with-zlib=${ZLIB_BASE_DIR} --with-default-file-ver=7.3 --enable-mat73=yes --prefix=<INSTALL_DIR>
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BUILD_COMMAND "${CMAKE_MAKE_PROGRAM}"
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BUILD_BYPRODUCTS ${CMAKE_CURRENT_BINARY_DIR}/matio/lib/${CMAKE_FIND_LIBRARY_PREFIXES}matio${CMAKE_STATIC_LIBRARY_SUFFIX}
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)
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endif(CMAKE_VERSION VERSION_LESS 3.2)
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set(MATIO_LIBRARIES ${CMAKE_CURRENT_BINARY_DIR}/matio/lib/${CMAKE_FIND_LIBRARY_PREFIXES}matio${CMAKE_STATIC_LIBRARY_SUFFIX} ${HDF5_LIBRARIES} ${ZLIB_LIBRARIES} )
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set(MATIO_INCLUDE_DIRS ${CMAKE_CURRENT_BINARY_DIR}/matio/include )
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endif(NOT MATIO_FOUND)
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########################################################################
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# Set compiler flags
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########################################################################
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@ -0,0 +1,100 @@
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# FindMATIO
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#
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# Try to find MATIO library
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#
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# Once done this will define:
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#
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# MATIO_FOUND - True if MATIO found.
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# MATIO_LIBRARIES - MATIO libraries.
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# MATIO_INCLUDE_DIRS - where to find matio.h, etc..
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# MATIO_VERSION_STRING - version number as a string (e.g.: "1.3.4")
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#
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#=============================================================================
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# Copyright 2015 Avtech Scientific <http://avtechscientific.com>
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#
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# Redistribution and use in source and binary forms, with or without
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# modification, are permitted provided that the following conditions
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# are met:
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#
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# * Redistributions of source code must retain the above copyright
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# notice, this list of conditions and the following disclaimer.
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#
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# * Redistributions in binary form must reproduce the above copyright
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# notice, this list of conditions and the following disclaimer in the
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# documentation and/or other materials provided with the distribution.
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#
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# * Neither the names of Kitware, Inc., the Insight Software Consortium,
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# nor the names of their contributors may be used to endorse or promote
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# products derived from this software without specific prior written
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# permission.
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#
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# THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
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# "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
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# LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR
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# A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT
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# HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
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# SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT
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# LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE,
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# DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY
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# THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
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# (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
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# OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
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#=============================================================================
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#
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# Look for the header file.
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find_path(MATIO_INCLUDE_DIR NAMES matio.h DOC "The MATIO include directory")
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# Look for the library.
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find_library(MATIO_LIBRARY NAMES matio DOC "The MATIO library")
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if(MATIO_INCLUDE_DIR)
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# ---------------------------------------------------
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# Extract version information from MATIO
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# ---------------------------------------------------
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# If the file is missing, set all values to 0
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set(MATIO_MAJOR_VERSION 0)
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set(MATIO_MINOR_VERSION 0)
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set(MATIO_RELEASE_LEVEL 0)
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# new versions of MATIO have `matio_pubconf.h`
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if(EXISTS ${MATIO_INCLUDE_DIR}/matio_pubconf.h)
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set(MATIO_CONFIG_FILE "matio_pubconf.h")
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else()
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set(MATIO_CONFIG_FILE "matioConfig.h")
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endif()
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if(MATIO_CONFIG_FILE)
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# Read and parse MATIO config header file for version number
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file(STRINGS "${MATIO_INCLUDE_DIR}/${MATIO_CONFIG_FILE}" _matio_HEADER_CONTENTS REGEX "#define MATIO_((MAJOR|MINOR)_VERSION)|(RELEASE_LEVEL) ")
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foreach(line ${_matio_HEADER_CONTENTS})
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if(line MATCHES "#define ([A-Z_]+) ([0-9]+)")
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set("${CMAKE_MATCH_1}" "${CMAKE_MATCH_2}")
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endif()
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endforeach()
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unset(_matio_HEADER_CONTENTS)
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endif()
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set(MATIO_VERSION_STRING "${MATIO_MAJOR_VERSION}.${MATIO_MINOR_VERSION}.${MATIO_RELEASE_LEVEL}")
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endif ()
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#==================
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mark_as_advanced(MATIO_INCLUDE_DIR MATIO_LIBRARY)
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# handle the QUIETLY and REQUIRED arguments and set MATIO_FOUND to TRUE if
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# all listed variables are TRUE
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include(FindPackageHandleStandardArgs)
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FIND_PACKAGE_HANDLE_STANDARD_ARGS(MATIO REQUIRED_VARS MATIO_LIBRARY MATIO_INCLUDE_DIR VERSION_VAR MATIO_VERSION_STRING)
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if(MATIO_FOUND)
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set(MATIO_LIBRARIES ${MATIO_LIBRARY})
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set(MATIO_INCLUDE_DIRS ${MATIO_INCLUDE_DIR})
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else(MATIO_FOUND)
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set(MATIO_LIBRARIES)
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set(MATIO_INCLUDE_DIRS)
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endif(MATIO_FOUND)
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@ -320,6 +320,7 @@ include_directories(
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${VOLK_GNSSSDR_INCLUDE_DIRS}
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${GNSS_SDR_TEST_OPTIONAL_HEADERS}
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${GNSS_SDR_TEST_OPTIONAL_HEADERS}
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${MATIO_INCLUDE_DIRS}
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)
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@ -354,6 +355,7 @@ if(ENABLE_UNIT_TESTING)
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signal_processing_testing_lib
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${VOLK_GNSSSDR_LIBRARIES}
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${GNSS_SDR_TEST_OPTIONAL_LIBS}
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${MATIO_LIBRARIES}
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)
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if(NOT ${GTEST_DIR_LOCAL})
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add_dependencies(run_tests gtest-${GNSSSDR_GTEST_LOCAL_VERSION})
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@ -70,6 +70,7 @@ DECLARE_string(log_dir);
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#include "unit-tests/arithmetic/code_generation_test.cc"
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#include "unit-tests/arithmetic/fft_length_test.cc"
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#include "unit-tests/arithmetic/fft_speed_test.cc"
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#include "unit-tests/arithmetic/matio_test.cc"
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#include "unit-tests/control-plane/file_configuration_test.cc"
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#include "unit-tests/control-plane/in_memory_configuration_test.cc"
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@ -0,0 +1,134 @@
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/*!
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* \file matio_test.cc
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* \brief This file implements tests for the matio library
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* in long arrays.
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* \author Carles Fernandez-Prades, 2017. cfernandez(at)cttc.es
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*
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*
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* -------------------------------------------------------------------------
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*
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* Copyright (C) 2010-2017 (see AUTHORS file for a list of contributors)
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*
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* GNSS-SDR is a software defined Global Navigation
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* Satellite Systems receiver
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*
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* This file is part of GNSS-SDR.
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*
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* GNSS-SDR is free software: you can redistribute it and/or modify
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* it under the terms of the GNU General Public License as published by
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* the Free Software Foundation, either version 3 of the License, or
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* (at your option) any later version.
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*
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* GNSS-SDR is distributed in the hope that it will be useful,
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* but WITHOUT ANY WARRANTY; without even the implied warranty of
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* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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* GNU General Public License for more details.
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*
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* You should have received a copy of the GNU General Public License
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* along with GNSS-SDR. If not, see <http://www.gnu.org/licenses/>.
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*
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* -------------------------------------------------------------------------
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*/
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#include <matio.h>
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#include <cstdio>
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#include <gnuradio/gr_complex.h>
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TEST(MatioTest, WriteAndReadDoubles)
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{
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// Write a .mat file
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mat_t *matfp;
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matvar_t *matvar;
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std::string filename = "./test.mat";
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matfp = Mat_CreateVer(filename.c_str(), NULL, MAT_FT_MAT73);
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ASSERT_FALSE(reinterpret_cast<long*>(matfp) == NULL) << "Error creating .mat file";
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double x[10] = { 1, 2, 3, 4, 5, 6, 7, 8, 9, 10};
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size_t dims[2] = {10, 1};
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matvar = Mat_VarCreate("x", MAT_C_DOUBLE, MAT_T_DOUBLE, 2, dims, x, 0);
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ASSERT_FALSE(reinterpret_cast<long*>(matvar) == NULL) << "Error creating variable for ’x’";
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Mat_VarWrite(matfp, matvar, MAT_COMPRESSION_ZLIB); // or MAT_COMPRESSION_NONE
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Mat_VarFree(matvar);
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Mat_Close(matfp);
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// Read a .mat file
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mat_t *matfp_read;
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matvar_t *matvar_read;
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matfp_read = Mat_Open(filename.c_str(), MAT_ACC_RDONLY);
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ASSERT_FALSE(reinterpret_cast<long*>(matfp_read) == NULL) << "Error reading .mat file";
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matvar_read = Mat_VarReadInfo(matfp_read, "x");
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ASSERT_FALSE(reinterpret_cast<long*>(matvar_read) == NULL) << "Error reading variable in .mat file";
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matvar_read = Mat_VarRead(matfp_read, "x");
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double *x_read = reinterpret_cast<double*>(matvar_read->data);
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Mat_Close(matfp_read);
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for(int i = 0; i < 10; i++)
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{
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EXPECT_DOUBLE_EQ(x[i], x_read[i]);
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}
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ASSERT_EQ(remove(filename.c_str()), 0);
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}
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TEST(MatioTest, WriteAndReadGrComplex)
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{
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// Write a .mat file
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mat_t *matfp;
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matvar_t *matvar;
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std::string filename = "./test2.mat";
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matfp = Mat_CreateVer(filename.c_str(), NULL, MAT_FT_MAT73);
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ASSERT_FALSE(reinterpret_cast<long*>(matfp) == NULL) << "Error creating .mat file";
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std::vector<gr_complex> x_v = { {1, 10}, {2, 9}, {3, 8}, {4, 7}, {5, 6}, {6, -5}, {7, -4}, {8, 3}, {9, 2}, {10, 1}};
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const int size = x_v.size();
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float x_real[size];
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float x_imag[size];
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for (int i = 0; i < x_v.size(); i++)
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{
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x_real[i] = x_v.at(i).real();
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x_imag[i] = x_v.at(i).imag();
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}
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struct mat_complex_split_t x = {x_real, x_imag};
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size_t dims[2] = {static_cast<size_t>(size), 1};
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matvar = Mat_VarCreate("x", MAT_C_SINGLE, MAT_T_SINGLE, 2, dims, &x, MAT_F_COMPLEX);
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ASSERT_FALSE(reinterpret_cast<long*>(matvar) == NULL) << "Error creating variable for ’x’";
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Mat_VarWrite(matfp, matvar, MAT_COMPRESSION_ZLIB); // or MAT_COMPRESSION_NONE
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Mat_VarFree(matvar);
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Mat_Close(matfp);
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// Read a .mat file
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mat_t *matfp_read;
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matvar_t *matvar_read;
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matfp_read = Mat_Open(filename.c_str(), MAT_ACC_RDONLY);
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ASSERT_FALSE(reinterpret_cast<long*>(matfp_read) == NULL) << "Error reading .mat file";
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matvar_read = Mat_VarReadInfo(matfp_read, "x");
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ASSERT_FALSE(reinterpret_cast<long*>(matvar_read) == NULL) << "Error reading variable in .mat file";
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matvar_read = Mat_VarRead(matfp_read, "x");
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mat_complex_split_t *x_read_st = reinterpret_cast<mat_complex_split_t*>(matvar_read->data);
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float * x_read_real = reinterpret_cast<float*>(x_read_st->Re);
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float * x_read_imag = reinterpret_cast<float*>(x_read_st->Im);
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std::vector<gr_complex> x_v_read;
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for(int i = 0; i < size; i++)
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{
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x_v_read.push_back(gr_complex(x_read_real[i], x_read_imag[i]));
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}
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Mat_Close(matfp_read);
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for(int i = 0; i < size; i++)
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{
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EXPECT_FLOAT_EQ(x_v[i].real(), x_v_read[i].real());
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EXPECT_FLOAT_EQ(x_v[i].imag(), x_v_read[i].imag());
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}
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ASSERT_EQ(remove(filename.c_str()), 0);
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}
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